Biological controls for standardization and interpretation of adaptive immune receptor repertoire profiling

• Type of Material: Article
• Authors: Johannes Truck, University of Zurich; Anne Eugster, Technische Universitat Dresden; Pierre Barennes, Sorbonne Université U959; Christopher Tipton, Emory University; Eline Luning T Prak, University of Pennsylvania; Davide Bagnara, University of Genoa; Cinque Soto, Vanderbilt University; Jacob S Sherkow, University of Illinois, Champaign; Aimee S Payne, University of Pennsylvania; Marie-Paule Lefranc, University of Montpellier; Andrew Farmer, Takara Bio USA Inc; Magnolia Bostick, Takara Bio USA Inc; Encarnita Mariotti-Ferrandiz, Sorbonne Université U959
• Language: English
• Date: 2021-05-26
• Publisher: eLIFE SCIENCES PUBL LTD
• Publication Version: Final Published Version
• Copyright Statement: © 2021, Trück et al
• License: Creative Commons Attribution 4.0 International
• Final Published Version (URL): http://dx.doi.org/10.7554/eLife.66274
• Title of Journal or Parent Work: ELIFE
• Volume: 10
• Grant/Funding Information: National Institutes of Health P30-CA016520 to Eline T Luning Prak.; National Institutes of Health UC4 DK112217 to Eline T Luning Prak.; DFG FZ 111 to Anne Eugster.; Agence Nationale de la Recherche ANR-11-IDEX-0004-02 to Encarnita Mariotti-Ferrandiz.; Swiss National Science Foundation PZ00P3_183777 to Johannes Trück.; National Institutes of Health P01 AI106697 to Eline T Luning Prak.; Swiss National Science Foundation PZ00P3_161147 to Johannes Trück.; This paper was supported by the following grants:; FP7 Ideas: European Research Council Fp7-IdEAS-ErC-322856 to Encarnita Mariotti-Ferrandiz.; Agence Nationale de la Recherche ANR-16-rHUS-0001 to Pierre Barennes.; National Institutes of Health P30-AI0450080 to Eline T Luning Prak.; National Institutes of Health UM1 AI144288 to Eline T Luning Prak.; Agence Nationale de la Recherche ANR-18-ECVD-0001 to Encarnita Mariotti-Ferrandiz.; H2020 Fast Track to Innovation 825821 to Encarnita Mariotti-Ferrandiz.
• Keywords: IMMUNOGLOBULIN; GENES; STRATEGIES; DIVERSITY; Biology; REPRODUCIBILITY; GENERATION; SPECIFICITIES; Life Sciences & Biomedicine; LIBRARIES; ACCURACY; T-CELL-RECEPTOR; Life Sciences & Biomedicine - Other Topics; Science & Technology
• Research Categories: Health Sciences, Medicine and Surgery; Health Sciences, Immunology

Abstract

Use of adaptive immune receptor repertoire sequencing (AIRR-seq) has become widespread, providing new insights into the immune system with potential broad clinical and diagnostic applications. However, like many high-throughput technologies, it comes with several problems, and the AIRR Community was established to understand and help solve them. We, the AIRR Community’s Biological Resources Working Group, have surveyed scientists about the need for standards and controls in generating and annotating AIRR-seq data. Here, we review the current status of AIRR-seq, provide the results of our survey, and based on them, offer recommendations for developing AIRR-seq standards and controls, including future work.